Sousa Filipe, Civáň Peter, Brazão João, Foster Peter G, Cox Cymon J
Centro de Ciências do Mar, Universidade do Algarve, Faro, Portugal.
INRAE-Université Clermont-Auvergne, Clermont-Ferrand, France.
PeerJ. 2020 Apr 28;8:e8995. doi: 10.7717/peerj.8995. eCollection 2020.
Congruence among analyses of plant genomic data partitions (nuclear, chloroplast and mitochondrial) is a strong indicator of accuracy in plant molecular phylogenetics. Recent analyses of both nuclear and chloroplast genome data of land plants (embryophytes) have, controversially, been shown to support monophyly of both bryophytes (mosses, liverworts, and hornworts) and tracheophytes (lycopods, ferns, and seed plants), with mosses and liverworts forming the clade Setaphyta. However, relationships inferred from mitochondria are incongruent with these results, and typically indicate paraphyly of bryophytes with liverworts alone resolved as the earliest-branching land plant group. Here, we reconstruct the mitochondrial land plant phylogeny from a newly compiled data set. When among-lineage composition heterogeneity is accounted for in analyses of codon-degenerate nucleotide and amino acid data, the clade Setaphyta is recovered with high support, and hornworts are supported as the earliest-branching lineage of land plants. These new mitochondrial analyses demonstrate partial congruence with current hypotheses based on nuclear and chloroplast genome data, and provide further incentive for revision of how plants arose on land.
植物基因组数据分区（核基因组、叶绿体基因组和线粒体基因组）分析结果之间的一致性是植物分子系统发育准确性的有力指标。最近对陆地植物（有胚植物）的核基因组和叶绿体基因组数据的分析结果颇具争议，这些分析表明苔藓植物（苔藓、地钱和角苔）和维管植物（石松、蕨类植物和种子植物）均为单系类群，其中苔藓和地钱构成了Setaphyta分支。然而，从线粒体基因组推断出的关系与这些结果不一致，通常表明苔藓植物是并系类群，仅地钱被解析为最早分支的陆地植物类群。在此，我们根据新汇编的数据集重建了陆地植物线粒体基因组系统发育。当在密码子简并核苷酸和氨基酸数据分析中考虑谱系组成异质性时，Setaphyta分支获得了高度支持，并且角苔被支持为陆地植物最早分支的谱系。这些新的线粒体基因组分析表明，与基于核基因组和叶绿体基因组数据的当前假说部分一致，并为修订植物在陆地上的起源方式提供了进一步的动力。
